Ya-Zhou Shi

This study uses a coarse-grained model to show how spatial confinement affects DNA folding stability and conformational flexibility under varying ionic conditions.

gCoSRNA predicts coaxial stacking in RNA junctions using sequence and secondary structure, achieving high accuracy across multiple branch types.

The paper introduces MobiSeq, a method combining deep mutational scanning and mobility-based selection to predict RNA tertiary structures by analyzing covariational signals and improving energy-based predictions.

The paper introduces rsRNASP, a statistical potential for RNA 3D structure evaluation, showing superior performance compared to existing methods on test datasets.

The paper introduces PTRNAmark, a knowledge-based potential for evaluating 3D RNA structures, showing it outperforms existing methods in identifying native structures from near-native ones.